Chief Judicial Magistrate Narendra Bahadur Prasad directed the Line Bazar police to register the case and probe the matter.
The court's direction came on a petition filed by a local lawyer Himanshu Srivastava.
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In his complaint, Srivastava has alleged that Hazare had come to a college here to address a meeting during his 'Jantatra Yatra' on a vehicle, on which a full size national tricolour was pasted. The meeting went on till 8 PM and this amounted to showing disrespect to the flag.
Earlier, a delegation of local lawyers had also met the Superintendent of Police stressing that though they were supporters of Hazare's anti-corruption campaign and had therefore gone to the meeting, they were hurt by the disrespect of the National Flag at the meeting and demanded lodging a case.
According to the rules, the national tricolour should be hoisted from sunrise to sunset and not beyond that.